Showing : clusterProfiler • reset
1
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3
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1.0k
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CluserProfiler message "No gene can be mapped"
clusterProfiler
updated 5 weeks ago by 68k • written 6 weeks ago by • 0
0
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3
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1.0k
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Gene Ontology (GO) Analysis
GOstats hyperGTest GO enrichGO clusterProfiler
6 weeks ago • updated 25 days ago GA ▴ 10
0
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1
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365
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Error in cnetplot
enrichplot clusterProfiler
updated 10 weeks ago by ★ 4.1k • written 11 weeks ago by • 0
0
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1
reply
352
views
KEGG GSEA using Clusterprofiler - ncbi-geneid missing?
clusterProfiler KEGG
3 months ago Jessica • 0
0
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4
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754
views
How to sort negative log2FC or FC in RNAseq for GSEA?
DESeq2 GSEA clusterProfiler
4 months ago Quang NN ▴ 10
2
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2
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751
views
clusterProfiler enrichGO on only T-cell related GO terms
clusterProfiler
updated 7 months ago by ★ 1.2k • written 7 months ago by • 0
7
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9
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1.6k
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clusterProfiler: BgRatio N value does not match the size of the gene universe that has GO annotations.
GO clusterProfiler enr
updated 8 months ago by ★ 4.1k • written 8 months ago by • 0
0
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5
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1.2k
views
ı cant install clusterprofiler on my Ubuntu 20.04.6 LTS
Bioconductor clusterProfiler
updated 8 months ago by ▴ 760 • written 8 months ago by • 0
1
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2
replies
2.8k
views
How to use compareCluster in ClusterProfiler?
RNASeqData GSEA clusterProfiler
written 9 months ago by • 0
0
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1
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1.1k
views
question about gseGO() in clusterprofiler package
clusterProfiler
updated 9 months ago by ★ 4.1k • written 9 months ago by • 0
1
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5
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1.9k
views
Heatmap from the output of GSEA clusterProfiler?
clusterProfiler heatmaps
written 9 months ago by • 0
2
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4
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1.3k
views
# Invalid keytype: GOALL. Please use the keytypes method to see a listing of valid arguments.
clusterProfiler makeOrgPackage gseGO
updated 9 months ago by 68k • written 9 months ago by • 0
1
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2
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693
views
Question on number of genes used in GO analysis
GO clusterProfiler
10 months ago Danté • 0
1
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1
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1.1k
views
Differences between core_enrichment from gsePathway and viewPathway
FunctionalAnalysis clusterProfiler viewPathway gsePathway
updated 10 months ago by ★ 4.1k • written 10 months ago by • 0
3
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1
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1.7k
views
Difference between enrichGO results and Enrichr website results
Pathways GO.db clusterProfiler
updated 11 months ago by ★ 4.1k • written 11 months ago by ▴ 10
1
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2
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1.0k
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GESA with certain gene list returns no result with human genom, but many result with mouse genom.
clusterProfiler
11 months ago sawa • 0
1
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9
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2.8k
views
Most enriched pathway is not expressed when modifying universe parameter
DESeq2 clusterProfiler Pathways RNASeq org.Mm.eg.db
updated 11 months ago by 68k • written 11 months ago by ▴ 10
0
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1
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723
views
How can I get gseGO to return all GO terms tested?
clusterProfiler clusterp
updated 11 months ago by 68k • written 11 months ago by • 0
8
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6
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8.4k
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Using the plotting functions of clusterProfiler / enrichplot with enrichment results from other programs
clusterProfiler enrichplot
updated 12 months ago by ▴ 30 • written 6.1 years ago by ▴ 180
0
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4
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1.2k
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error running enricher from clusterprofiler
clusterProfiler cluster
12 months ago Yael • 0
0
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1
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1.3k
views
Gene set enrichment analysis
clusterProfiler GeneSetEnrichment
updated 12 months ago by ★ 4.1k • written 12 months ago by • 0
1
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1
reply
530
views
Cannabis OrgDb
KEGGgraph org.Cs.eg.db clusterProfiler KEGG AnnotationHubSoftware
updated 13 months ago by 68k • written 13 months ago by ▴ 30
5
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13
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3.4k
views
Trying to use enrichGO
clusterProfiler GenomicDistributionsData KEGG
13 months ago fernanda.backsouza ▴ 30
2
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2
replies
1.3k
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 13 months ago by 68k • written 13 months ago by • 0
1
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2
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2.0k
views
geneList error in clusterprofiler
clusterProfiler GeneSetEnrichment
13 months ago Ana • 0
2
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4
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2.0k
views
How many of my genes from my gene list are in each KEGG pathway?
Pathways clusterProfiler gseKEGG KEGG
written 13 months ago by • 0
0
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1
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2.2k
views
compareCluster dotplot: how to modify the genesets order
DOSE enrichplot clusterProfiler
updated 13 months ago by ★ 4.1k • written 14 months ago by • 0
0
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1
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514
views
How can I create a GO plot with ggpubr and clusterProfiler libraries (begginer)
clusterProfiler ggpubr
updated 14 months ago by 68k • written 14 months ago by • 0
0
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0
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564
views
Why output of GSEA is not the same but inversed, when you have the same but inversed input data?
clusterProfiler gseKEGG
14 months ago andromeda • 0
2
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2
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1.2k
views
Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
written 14 months ago by ▴ 10
4
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4
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4.9k
views
Function simplify fails when argument ont is set to "ALL" in enrichGO function in package clusterProfiler
clusterProfiler GO GO enrichment genesetenrichment
updated 14 months ago by • 0 • written 7.5 years ago by ▴ 20
2
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2
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1.6k
views
padj-based gradient scale from barplot (clusterProfiler results) does not work properly
enrichplot barplot clusterProfiler
14 months ago Eva ▴ 10
3
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9
replies
7.1k
views
enrichGOgradient color change
clusterProfiler
updated 5 months ago by • 0 • written 18 months ago by • 0
1
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1
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572
views
Clsuter Profiler "counts"
enrich clusterProfiler
updated 15 months ago by 68k • written 15 months ago by • 0
2
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15
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2.1k
views
Problems with enrichGO
clusterProfiler enrichGO
updated 15 months ago by 43k • written 16 months ago by • 0
0
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3
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1.4k
views
Unable to install clusterProfiler
clusterProfiler
updated 15 months ago by • 0 • written 16 months ago by • 0
0
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2
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1.2k
views
Problem with buildGOmap from clusterProfiler
clusterProfiler
16 months ago mello-vieira • 0
0
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1
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1.2k
views
ClusterProfiler result question: Why are all many of my resulting p.adjust values the same???
clusterProfiler
updated 16 months ago by 68k • written 16 months ago by • 0
4
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2
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1.1k
views
Enrichement with clusterProfiler and biomart
biomaRt clusterProfiler Zea_mays
updated 16 months ago by ★ 4.1k • written 16 months ago by • 0
0
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3
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2.2k
views
How can we use the organism database created by makeorgPackageFromNCBI to KEGG and GO analysis using clusterprofiler package.
clusterProfiler OrganismDb
updated 18 months ago by ★ 4.1k • written 18 months ago by • 0
3
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6
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4.0k
views
Result from GSEA for non-model organism not as expected
clusterProfiler
updated 18 months ago by 68k • written 2.6 years ago by ▴ 10
0
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9
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1.7k
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It's possible to use clusterProfiler without an annotationDBI package
clusterProfiler
18 months ago nromerov • 0
2
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9
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3.2k
views
object HPOGENE is not exported by namespace HPO.db
clusterProfiler HPO.db
updated 19 months ago by ▴ 50 • written 19 months ago by ▴ 30
3
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4
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2.6k
views
Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 19 months ago by ★ 4.1k • written 19 months ago by • 0
0
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2
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931
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Differential Expression Cutoffs for n = 1
clusterProfiler DESeq2
20 months ago • updated 19 months ago georgii.vdovin • 0
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0
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793
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clusterProfiler code to GO enrichment analysis seems to be incomplete
clusterProfiler DifferentialExpression
20 months ago nromerov • 0
0
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2
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1.9k
views
For R version 4.0.2 and Biconductor version 3.11, clusterProfiler is not working
Bioconductor clusterProfiler
updated 20 months ago by 68k • written 20 months ago by • 0
1
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2
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2.0k
views
Cluster profiler emap plot - what are the annotations?
clusterProfiler emapplot
21 months ago fluentin44 • 0
0
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2
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3.2k
views
apply clusterProfiler::simplify on merge_result list
clusterProfiler
21 months ago Valéria • 0
3
votes
2
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2.5k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG DESeq2 biomaRt clusterProfiler org.Mm.eg.db
updated 22 months ago by ★ 4.1k • written 22 months ago by ▴ 10
50 results • Page 1 of 1
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Answer: Deseq2 paired sample in the design is considered as "batch"? by ATpoint ★ 4.9k
It's the same. The analysis will be run with adjustment for the donor differences. Technically, that's the same as a batch, being an unwant…
Answer: Biological replicates consideration in DESeq2 design formula. by ATpoint ★ 4.9k
You clearly see that the PCA is dominated by the effect of "replicate", that is what people often call "batch effect", so unwanted technica…
Comment: Could we detect difference at pathway level but not significant different at gen by purnell • 0
You are absolutely right, and ChatGPT4's comment is accurate: yes, it's entirely possible to find differentially behaving pathways with GSV…
Comment: Position of the legend object in complexHeatmap by caroline.zanchi ▴ 10
I stay away from Rstudio in general too :) I remember having tried something similar without success. When I do ```r draw(pd, x = unit(0…
Comment: Position of the legend object in complexHeatmap by James W. MacDonald 68k
There is a 'just' argument for `draw` that has as its default 'center'. Getting to the corresponding help page is not intuitive though. If …
Votes
Answer: Biological replicates consideration in DESeq2 design formula.
Biological replicates consideration in DESeq2 design formula.
Biological replicates consideration in DESeq2 design formula.
Answer: limma duplicateCorrelation appropriate where some blocks cross condition and som
can't open mghp.osn.xsede.org
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